Raman molecular imaging is used to differentiate between normal and diseased cells or tissue. For instance benign and malignant lesions of bladder and other tissues can be distinguished, including epithelial tissues such as lung, prostate, kidney, breast, and colon, and non-epithelial tissues, such as bone marrow and brain. Raman scattering data relevant to the disease state of cells or tissue can be combined with visual image data to produce hybrid images which depict both a magnified view of the cellular structures and information relating to the disease state of the individual cells in the field of view.